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<h2>Invitation to DAS workshop 2009</h2>


We are organizing a 3-day workshop on DAS. <br/>

<h2>About</h2>

DAS is an important system for exchanging and viewing of biological data, 
with more than 400 DAS sources available world wide. Several different 
projects are working on applications and resources to provide DAS support. 
The purpose of this meeting is to improve communication between these projects and
let interested people learn what they can do with DAS and how to do it.
<br/>
All days on the workshop are optional. To make the most of having many DAS experts in one place there is an extra day this year
 for break off groups to push forward with their DAS projects.<br/>
People new to DAS will likely want to attend the first day, conversely experts may decide only to attend the 2nd and 3rd day.
<br/>

   
<h2>Location</h2>

Genome Campus, Hinxton


<h2>Schedule</h2>

<h3>Dates</h3>
<ul>
<li><strong>Monday 9th March, 2009 (Tutorials - Practical)</strong></li>
<li><strong>Tuesday 10th March, 2008 (Talks)</strong></li>
<li><strong>Wednesday 11th March, 2008 (Hackathon)</strong></li>

</ul>

<h4>Day 1 - Monday 9th March</h4>

Hands-on day <br/>
This is the practical day where you can learn how to work with DAS.
	<ul>
	<li> learn what you can do with DAS </li>
	<li> how to talk to a DAS server </li>
	<li> how to set up your own servers </li>
	</ul>

Prelimiary schedule:
<ol>
<li> What DAS commands look like.</li>
<li>How to request via Perl / Java.</li>
<li>How to set up a DAS server.</li>
<li>How to get a list from available servers from the DAS registry.</li>
</ol>

(tbc) ... to be confirmed <br/>

Evening: dinner in Cambridge or the Red Lion at Hinxton<br/>



<h4>Day 2 - Tuesday 10th March</h4>




DAS client developers days. <br/>
This is the day where developers present their DAS related applications, websites and discuss new ideas.

	<ul>
    <li> present the progress over the last year </li>
    <li> find synergies </li>
    <li> see if/how interoperability can be improved </li>
    <li> discuss possible future extensions to DAS </li>
	</ul>

Each participating group is invited to give a 15 min presentation. There is time for a short discussion after each talk.

Please contact <a href="mailto:jw12@sanger.ac.uk">Jonathan Warren</a> if you want to give a presentation on this day.


<p>
Prelimiary schedule:
</p>
<%@ include file="sangertablestart.jsp" %>
<tr class="row0"><td>Time</td><td>Project Name</td><td>Speaker</td>
<tr class="row2"><td>9:30</td><td>Tea/Coffee</td><td></td>
<tr class="row1"><td>10:00</td><td>Opening talk</td><td>Tim Hubbard</td>
<tr class="row2"><td>10:20</td><td>collaborative annotation tool (MaDAS)</td><td>Victor de la Torre</td></tr>
<tr class="row1"><td>10:40</td><td>Jalview / VAMSAS</td><td>Jim Procter / Geoff Barton</td></tr>
<tr class="row2"><td>11:00</td><td>Pfam</td><td>Rob Finn</td>
<tr class="row1"><td>11:20</td><td>DASgenexp</td><td>Bernat Gel</td>
<tr class="row2"><td>11:40</td><td>Dasty2</td><td>Rafael Jimenez</td></tr>
<tr class="row1"><td>12:00</td><td>EMBOSS as an
efficient DAS annotation source</td><td>Peter Rice, Mahmut Uludag</td></tr>
<tr class="row0"><td>12:15-13:30</td><td>Lunch break</td><td></td></tr>
<tr class="row1"><td>13:30</td><td>Ensembl</td><td>James Smith</td></tr>
<tr class="row2"><td>13:50</td><td>Integration of info on gene expression and its temporal and spatial localization</td><td> Jose Ramon Macias</td><tr>
<tr class="row1"><td>14:10</td><td>DAS - writeback</td><td>Gustavo Salazar</td></tr>
<tr class="row2"><td>14:30</td><td>Interaction DAS</td><td>Hagen Blankenburg</td></tr>
<tr class="row1"><td>14:50</td><td>DAS for ENCODE data coordination</td><td>Felix Kokocinski</td></tr>
<tr class="row0"><td>15:10-15:30</td><td>Coffee break</td><td></td></tr>
<tr class="row1"><td>15:30</td><td>A web resource for selecting 
epitopes for antibodies</td><td>Niall Haslam</td></tr>
<tr class="row2"><td>15:50</td><td>DAS searches </td><td>Andreas Prlic</td></tr>
<tr class="row1"><td>16:10</td><td>A karyotype DAS
        client</td><td>Rafael Jimenez</td></tr>
<tr class="row2"><td>16:30</td><td>DASher, a standalone Java client for DAS protein sequence features</td><td>David Messina</td></tr>
<tr class="row1"><td>17:00</td><td>Data Federation - BioMart & DAS</td><td>Syed Haider</td></tr>
<tr class="row2"><td>17:30?</td><td>Discussion/talk about activity organisation of next day - preliminary groups and chairs of groups</td><td></td></tr>


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<h4>Day 3 - Wednesday 11th March</h4>
Work on pushing forward with specific projects/aspects of DAS. Please suggest subjects when you register.
<h3>Suggestions so far include:</h3>
<ul>
    <li> DAS1/DAS2 merger</li>
    <li> DAS writeback</li>
    <li>Adapting Java DAS client libraries for alignment and PDB file retrieval for clients that dont use BioJava</li>
<li>Ajax das client/server library (allow DAS server discovery and
retrieval on the browser page)</li>
<li>Graphical Representation of data</li>
<li>DAS interfaces to sequence analysis tools</li>
<li>BioSapiens ontology lookup</li>
<li>DAS vs. ontologies, how and why.</li>
<li>DAS 1.6 spec and where to go with the Registry</li>

	</ul>

<h2>Costs Summary</h2>
<ul><li>Registration - Free.</li>
<li>Travel - Cost born by participants unless they are part of the BioSapiens project.</li>
<li>Accommodation - Cost born by participants unless they are part of the BioSapiens project in which case they can claim it back.</li>
<li>Dinner in Cambridge or the Mogul (indian restaurant) on Monday evening - Free.</li>
<li>Lunches and coffee - Free (except for the 3rd day)</li>
</ul>
<h2>Registration</h2>

<% 
boolean showRegistrationButton = false;
CourseManager courseManager = new CourseManager();

if ( courseManager.registrationOpen() ) {
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<%
	if (email != null){ 
		   
		  if (	courseManager.isRegisteredUser(email)) {
			  showRegistrationButton = true;
			  %><img src="img/ok16x16.png"/> You are already registered for the DAS workshop [ <a href="course_register.jsp"> update registration</a> ]<%
		  }

		} 

		if ( ! showRegistrationButton ) {
		%>
	Registration is free, but places are limited. Since we are expecting that this workshop will be fully booked again,
	please make sure to register yourself as soon as possible. Deadline for registrations is 1st February 2009.
	<br/>
		[ <a href="course_register.jsp">Proceed to registration</a> ]

		<%}
	
} else {
	%> 
The workshop is fully booked now and the registration has been closed.
If you are a registered participant we will contact you directly per email.

<%
	if ( courseManager.isRegisteredUser(email)) {
	 %>Registerred users can still update their registration data [<a href="course_register.jsp">update registration</a>]<% 
	}
%>
<br/>
If you have any further questions please do not hesitate to contact <a href="mailto:jw12@sanger.ac.uk">jw12@sanger.ac.uk</a>.
<br/><%
}

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</li>
</ul>
<h2>Further Information for Attendees:</h2>

<a href="WorkshopExtraInfo.jsp">Extra Information</a> Detailed schedule and extra info for people staying in the Saffron Hotel.


<h2>Contact</h2>

Please send any feedback, comments and suggestions to <a href="mailto:jw12@sanger.ac.uk">Jonathan Warren</a><br/>
For non-scientific queries related to organisation please email <a href="mailto:cb13@sanger.ac.uk">Caren Brockington</a>


<h2>Travel directions to the campus</h2>
<a href="http://www.ebi.ac.uk/Information/Travel/travel.html">http://www.ebi.ac.uk/Information/Travel/travel.html</a>

 
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